Papers

Manuscripts

NORi: An ML-augmented Ocean Boundary Layer Parameterization.
Xin Kai Lee, Ali Ramadhan, Andre Souza, Gregory L. Wagner, Simone Silvestri, John Marshall, Raffaele Ferrari.
Submitted to Journal of Advances in Modeling Earth Systems, 2025.
PDF | DOI

An FFT‑based Preconditioner for Conjugate Gradient Pressure Solvers in Complex Domains.
Xin Kai Lee, Gregory L. Wagner, Simone Silvestri, Raffaele Ferrari.
In Prep. (submitting soon!)

Using a WENO‑based Advection Scheme for Implicit Large‑Eddy Simulations of Vertical Mixing in the Upper Ocean.
Xin Kai Lee, Simone Silvestri, Andre Souza, Raffaele Ferrari.
In Prep.

A low-storage Runge-Kutta framework for non-linear free-surface ocean models.
Simone Silvestri, Jean-Michel Campin, Gregory LeClaire Wagner, Navid C Constantinou, Xin Kai Lee, Raffaele Ferrari.
Submitted to Journal of Advances in Modeling Earth Systems, 2026.
PDF | DOI

High-level, high-resolution ocean modeling at all scales with Oceananigans.
Gregory L. Wagner, Simone Silvestri, Navid C. Constantinou, Ali Ramadhan, Jean-Michel Campin, Chris Hill, Tomas Chor, Jago Strong-Wright, Xin Kai Lee, Francis Poulin, Andre Souza, Keaton J. Burns, Siddhartha Bishnu, John Marshall, Raffaele Ferrari.
Submitted to Journal of Advances in Modeling Earth Systems, 2025.
PDF | DOI

Explainable deep learning with custom filter design for single-molecule fingerprinting using solid-state nanopores.
Arjav Shah, Xin Kai Lee, Kun Li, Grant A. Knappe, Mark Bathe, George Barbastathis, Patrick S. Doyle.
ACS Sensors, 2026.
PDF | DOI

Capturing missing physics in climate model parameterizations using neural differential equations.
Ali Ramadhan, John Marshall, Andre Souza, Xin Kai Lee, Ulyana Piterbarg, Adeline Hillier, Gregory LeClaire Wagner, Christopher Rackauckas, Chris Hill, Jean-Michel Campin, Raffaele Ferrari.
arXiv, 2022.
PDF | DOI